
#######################################################
#                                                     #
#                        LGA                          #
#                  ---------------                    #
#                                                     #
#               Local-Global Alignment                #
#        A Method for Finding 3-D Similarities        #
#               in Protein Structures                 #
#                                                     #
#                  --------------- 06/2006            #
#                                                     #
#      Adam Zemla (adamz@llnl.gov)                    #
#      Lawrence Livermore National Laboratory, CA     #
#                                                     #
#######################################################

# Molecule1: number of CA atoms   19 (  158),  selected   19 , name T0386TS046_4-D2
# Molecule2: number of CA atoms   81 (  636),  selected   81 , name T0386_D2.pdb
# PARAMETERS: T0386TS046_4-D2.T0386_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    N     219      N     219          1.311
LGA    -       -      P     220           -
LGA    -       -      E     221           -
LGA    P     220      K     222          4.393
LGA    E     221      I     223          2.073
LGA    K     222      R     224          3.395
LGA    I     223      L     225          3.114
LGA    R     224      L     226           #
LGA    -       -      K     227           -
LGA    -       -      E     228           -
LGA    -       -      F     229           -
LGA    -       -      M     230           -
LGA    -       -      H     231           -
LGA    -       -      T     232           -
LGA    -       -      M     233           -
LGA    -       -      K     234           -
LGA    -       -      N     235           -
LGA    -       -      T     236           -
LGA    -       -      G     237           -
LGA    -       -      R     238           -
LGA    -       -      N     239           -
LGA    -       -      V     240           -
LGA    -       -      N     241           -
LGA    -       -      D     242           -
LGA    -       -      R     243           -
LGA    -       -      P     244           -
LGA    -       -      V     245           -
LGA    -       -      M     246           -
LGA    L     225      V     247           #
LGA    -       -      A     248           -
LGA    -       -      K     249           -
LGA    -       -      E     250           -
LGA    -       -      G     251           -
LGA    -       -      E     252           -
LGA    -       -      T     253           -
LGA    -       -      Y     254           -
LGA    -       -      T     255           -
LGA    -       -      G     256           -
LGA    -       -      T     257           -
LGA    -       -      Y     258           -
LGA    -       -      R     259           -
LGA    -       -      G     260           -
LGA    -       -      A     261           -
LGA    -       -      G     262           -
LGA    -       -      L     263           -
LGA    L     226      E     264          3.558
LGA    K     227      G     265          4.296
LGA    -       -      F     266           -
LGA    -       -      A     267           -
LGA    -       -      L     268           -
LGA    -       -      N     269           -
LGA    -       -      V     270           -
LGA    -       -      K     271           -
LGA    -       -      G     272           -
LGA    -       -      A     273           -
LGA    -       -      Y     274           -
LGA    -       -      I     275           -
LGA    -       -      I     276           -
LGA    E     228      G     277          5.031
LGA    F     229      N     278          2.394
LGA    M     230      I     279          1.128
LGA    H     231      D     280          0.147
LGA    T     232      H     281          1.374
LGA    M     233      L     282          1.786
LGA    K     234      -       -           -
LGA    N     235      -       -           -
LGA    T     236      P     283          1.351
LGA    G     237      P     284          3.044
LGA    -       -      E     285           -
LGA    -       -      Q     286           -
LGA    -       -      L     287           -
LGA    -       -      K     288           -
LGA    -       -      I     289           -
LGA    -       -      L     290           -
LGA    -       -      K     291           -
LGA    -       -      P     292           -
LGA    -       -      G     293           -
LGA    -       -      D     294           -
LGA    -       -      K     295           -
LGA    -       -      I     296           -
LGA    -       -      T     297           -
LGA    -       -      F     298           -
LGA    -       -      T     299           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   19   81    5.0     15    2.90     6.67     13.181     0.500

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.568626 * X  +   0.430255 * Y  +   0.701103 * Z  +  -5.573682
  Y_new =   0.503104 * X  +   0.492410 * Y  +  -0.710224 * Z  +  26.429743
  Z_new =  -0.650808 * X  +   0.756580 * Y  +   0.063534 * Z  +  31.253424 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.487018   -1.654575  [ DEG:    85.1998    -94.8002 ]
  Theta =   0.708648    2.432945  [ DEG:    40.6025    139.3975 ]
  Phi   =   0.724338   -2.417255  [ DEG:    41.5015   -138.4985 ]
 
# END of job
REMARK  ---------------------------------------------------------- 
REMARK   Citing LGA: 
REMARK   Zemla A., LGA - a Method for Finding 3D Similarities in  
REMARK   Protein Structures, Nucleic Acids Research, 2003, V. 31, 
REMARK   No. 13, pp. 3370-3374. 
REMARK  ---------------------------------------------------------- 
REMARK   Superimposed MOLECULES (1=>2)   Output: 1 molecule      
REMARK     1: T0386TS046_4-D2                               
REMARK     2: T0386_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0386TS046_4-D2.T0386_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   19   81   5.0   15   2.90    6.67  13.181
REMARK  ---------------------------------------------------------- 
MOLECULE T0386TS046_4-D2
PFRMAT TS
TARGET T0386
MODEL 4
PARENT 2G03_A
ATOM   1462  N   ASN   219       2.682  56.255  75.096  1.00  5.27
ATOM   1463  CA  ASN   219       4.001  56.444  74.573  1.00  5.27
ATOM   1464  C   ASN   219       4.424  57.907  74.565  1.00  5.27
ATOM   1465  O   ASN   219       5.653  58.016  74.602  1.00  5.27
ATOM   1466  CB  ASN   219       4.084  55.939  73.132  1.00  5.27
ATOM   1467  CG  ASN   219       4.052  54.426  73.043  1.00  5.27
ATOM   1468  OD1 ASN   219       4.341  53.730  74.017  1.00  5.27
ATOM   1469  ND2 ASN   219       3.698  53.910  71.870  1.00  5.27
ATOM   1470  N   PRO   220       3.591  59.011  74.592  1.00  6.15
ATOM   1471  CA  PRO   220       4.019  60.408  74.439  1.00  6.15
ATOM   1472  C   PRO   220       5.046  60.623  75.329  1.00  6.15
ATOM   1473  O   PRO   220       4.852  60.879  76.510  1.00  6.15
ATOM   1474  CB  PRO   220       2.763  61.218  74.769  1.00  6.15
ATOM   1475  CG  PRO   220       1.632  60.331  74.371  1.00  6.15
ATOM   1476  CD  PRO   220       2.024  58.942  74.790  1.00  6.15
ATOM   1477  N   GLU   221       6.140  60.569  74.603  1.00  6.01
ATOM   1478  CA  GLU   221       7.375  60.294  75.115  1.00  6.01
ATOM   1479  C   GLU   221       7.742  61.248  76.137  1.00  6.01
ATOM   1480  O   GLU   221       8.067  60.792  77.217  1.00  6.01
ATOM   1481  CB  GLU   221       8.436  60.348  74.014  1.00  6.01
ATOM   1482  CG  GLU   221       9.840  60.008  74.486  1.00  6.01
ATOM   1483  CD  GLU   221      10.857  60.040  73.363  1.00  6.01
ATOM   1484  OE1 GLU   221      10.460  60.314  72.209  1.00  6.01
ATOM   1485  OE2 GLU   221      12.050  59.790  73.633  1.00  6.01
ATOM   1486  N   LYS   222       7.624  62.553  75.881  1.00  5.95
ATOM   1487  CA  LYS   222       8.166  63.483  76.818  1.00  5.95
ATOM   1488  C   LYS   222       7.496  63.434  78.130  1.00  5.95
ATOM   1489  O   LYS   222       8.145  63.425  79.183  1.00  5.95
ATOM   1490  CB  LYS   222       8.027  64.914  76.293  1.00  5.95
ATOM   1491  CG  LYS   222       8.933  65.234  75.115  1.00  5.95
ATOM   1492  CD  LYS   222       8.746  66.667  74.648  1.00  5.95
ATOM   1493  CE  LYS   222       9.633  66.980  73.454  1.00  5.95
ATOM   1494  NZ  LYS   222       9.436  68.372  72.964  1.00  5.95
ATOM   1495  N   ILE   223       6.163  63.383  78.074  1.00  5.85
ATOM   1496  CA  ILE   223       5.397  63.474  79.259  1.00  5.85
ATOM   1497  C   ILE   223       5.648  62.343  80.151  1.00  5.85
ATOM   1498  O   ILE   223       5.886  62.493  81.359  1.00  5.85
ATOM   1499  CB  ILE   223       3.888  63.492  78.956  1.00  5.85
ATOM   1500  CG1 ILE   223       3.504  64.784  78.233  1.00  5.85
ATOM   1501  CG2 ILE   223       3.084  63.403  80.244  1.00  5.85
ATOM   1502  CD1 ILE   223       2.104  64.770  77.659  1.00  5.85
ATOM   1503  N   ARG   224       5.633  61.177  79.510  1.00  6.08
ATOM   1504  CA  ARG   224       5.744  59.972  80.221  1.00  6.08
ATOM   1505  C   ARG   224       7.058  59.913  80.876  1.00  6.08
ATOM   1506  O   ARG   224       7.111  59.475  82.015  1.00  6.08
ATOM   1507  CB  ARG   224       5.604  58.777  79.275  1.00  6.08
ATOM   1508  CG  ARG   224       5.674  57.426  79.968  1.00  6.08
ATOM   1509  CD  ARG   224       4.521  57.245  80.942  1.00  6.08
ATOM   1510  NE  ARG   224       3.223  57.380  80.286  1.00  6.08
ATOM   1511  CZ  ARG   224       2.638  56.417  79.581  1.00  6.08
ATOM   1512  NH1 ARG   224       1.456  56.631  79.020  1.00  6.08
ATOM   1513  NH2 ARG   224       3.235  55.241  79.441  1.00  6.08
ATOM   1514  N   LEU   225       8.132  60.337  80.181  1.00  6.19
ATOM   1515  CA  LEU   225       9.469  60.240  80.708  1.00  6.19
ATOM   1516  C   LEU   225       9.624  61.077  81.914  1.00  6.19
ATOM   1517  O   LEU   225      10.226  60.629  82.887  1.00  6.19
ATOM   1518  CB  LEU   225      10.491  60.706  79.669  1.00  6.19
ATOM   1519  CG  LEU   225      10.675  59.803  78.447  1.00  6.19
ATOM   1520  CD1 LEU   225      11.574  60.469  77.418  1.00  6.19
ATOM   1521  CD2 LEU   225      11.310  58.480  78.848  1.00  6.19
ATOM   1522  N   LEU   226       9.096  62.311  81.884  1.00  6.32
ATOM   1523  CA  LEU   226       9.310  63.150  83.022  1.00  6.32
ATOM   1524  C   LEU   226       8.683  62.596  84.245  1.00  6.32
ATOM   1525  O   LEU   226       9.283  62.547  85.329  1.00  6.32
ATOM   1526  CB  LEU   226       8.713  64.539  82.782  1.00  6.32
ATOM   1527  CG  LEU   226       8.854  65.544  83.928  1.00  6.32
ATOM   1528  CD1 LEU   226      10.319  65.820  84.224  1.00  6.32
ATOM   1529  CD2 LEU   226       8.183  66.861  83.572  1.00  6.32
ATOM   1530  N   LYS   227       7.438  62.150  84.061  1.00  6.14
ATOM   1531  CA  LYS   227       6.695  61.703  85.184  1.00  6.14
ATOM   1532  C   LYS   227       7.347  60.522  85.794  1.00  6.14
ATOM   1533  O   LYS   227       7.426  60.407  87.019  1.00  6.14
ATOM   1534  CB  LYS   227       5.275  61.315  84.768  1.00  6.14
ATOM   1535  CG  LYS   227       4.398  62.494  84.378  1.00  6.14
ATOM   1536  CD  LYS   227       3.004  62.037  83.980  1.00  6.14
ATOM   1537  CE  LYS   227       2.135  63.213  83.567  1.00  6.14
ATOM   1538  NZ  LYS   227       0.776  62.777  83.141  1.00  6.14
ATOM   1539  N   GLU   228       7.820  59.608  84.935  1.00  5.97
ATOM   1540  CA  GLU   228       8.370  58.376  85.413  1.00  5.97
ATOM   1541  C   GLU   228       9.626  58.632  86.167  1.00  5.97
ATOM   1542  O   GLU   228       9.882  57.929  87.141  1.00  5.97
ATOM   1543  CB  GLU   228       8.686  57.441  84.244  1.00  5.97
ATOM   1544  CG  GLU   228       7.457  56.886  83.543  1.00  5.97
ATOM   1545  CD  GLU   228       7.805  56.065  82.318  1.00  5.97
ATOM   1546  OE1 GLU   228       9.004  55.989  81.975  1.00  5.97
ATOM   1547  OE2 GLU   228       6.880  55.496  81.700  1.00  5.97
ATOM   1548  N   PHE   229      10.459  59.604  85.718  1.00  6.74
ATOM   1549  CA  PHE   229      11.703  59.852  86.406  1.00  6.74
ATOM   1550  C   PHE   229      11.427  60.344  87.780  1.00  6.74
ATOM   1551  O   PHE   229      12.095  59.954  88.744  1.00  6.74
ATOM   1552  CB  PHE   229      12.528  60.903  85.661  1.00  6.74
ATOM   1553  CG  PHE   229      13.839  61.224  86.319  1.00  6.74
ATOM   1554  CD1 PHE   229      14.926  60.380  86.176  1.00  6.74
ATOM   1555  CD2 PHE   229      13.985  62.369  87.082  1.00  6.74
ATOM   1556  CE1 PHE   229      16.133  60.675  86.782  1.00  6.74
ATOM   1557  CE2 PHE   229      15.192  62.664  87.688  1.00  6.74
ATOM   1558  CZ  PHE   229      16.262  61.822  87.541  1.00  6.74
ATOM   1559  N   MET   230      10.430  61.237  87.897  1.00  6.86
ATOM   1560  CA  MET   230      10.168  61.762  89.201  1.00  6.86
ATOM   1561  C   MET   230       9.745  60.667  90.132  1.00  6.86
ATOM   1562  O   MET   230      10.183  60.609  91.286  1.00  6.86
ATOM   1563  CB  MET   230       9.053  62.807  89.145  1.00  6.86
ATOM   1564  CG  MET   230       9.445  64.096  88.442  1.00  6.86
ATOM   1565  SD  MET   230      10.809  64.946  89.259  1.00  6.86
ATOM   1566  CE  MET   230      10.018  65.476  90.776  1.00  6.86
ATOM   1567  N   HIS   231       8.867  59.770  89.643  1.00  6.24
ATOM   1568  CA  HIS   231       8.334  58.752  90.504  1.00  6.24
ATOM   1569  C   HIS   231       9.414  57.808  90.949  1.00  6.24
ATOM   1570  O   HIS   231       9.403  57.361  92.095  1.00  6.24
ATOM   1571  CB  HIS   231       7.261  57.941  89.774  1.00  6.24
ATOM   1572  CG  HIS   231       6.630  56.877  90.616  1.00  6.24
ATOM   1573  ND1 HIS   231       5.794  57.163  91.674  1.00  6.24
ATOM   1574  CD2 HIS   231       6.652  55.421  90.639  1.00  6.24
ATOM   1575  CE1 HIS   231       5.386  56.011  92.234  1.00  6.24
ATOM   1576  NE2 HIS   231       5.897  54.962  91.619  1.00  6.24
ATOM   1577  N   THR   232      10.357  57.453  90.048  1.00  6.79
ATOM   1578  CA  THR   232      11.414  56.526  90.380  1.00  6.79
ATOM   1579  C   THR   232      12.287  57.096  91.448  1.00  6.79
ATOM   1580  O   THR   232      12.718  56.387  92.363  1.00  6.79
ATOM   1581  CB  THR   232      12.298  56.216  89.158  1.00  6.79
ATOM   1582  OG1 THR   232      11.506  55.602  88.134  1.00  6.79
ATOM   1583  CG2 THR   232      13.426  55.270  89.543  1.00  6.79
ATOM   1584  N   MET   233      12.595  58.399  91.338  1.00  6.95
ATOM   1585  CA  MET   233      13.452  58.983  92.328  1.00  6.95
ATOM   1586  C   MET   233      12.779  58.954  93.679  1.00  6.95
ATOM   1587  O   MET   233      13.427  58.719  94.702  1.00  6.95
ATOM   1588  CB  MET   233      13.770  60.436  91.972  1.00  6.95
ATOM   1589  CG  MET   233      14.695  61.129  92.959  1.00  6.95
ATOM   1590  SD  MET   233      15.033  62.843  92.511  1.00  6.95
ATOM   1591  CE  MET   233      13.467  63.613  92.914  1.00  6.95
ATOM   1592  N   LYS   234      11.457  59.214  93.727  1.00  6.93
ATOM   1593  CA  LYS   234      10.758  59.231  94.993  1.00  6.93
ATOM   1594  C   LYS   234      10.782  57.857  95.616  1.00  6.93
ATOM   1595  O   LYS   234      10.917  57.729  96.835  1.00  6.93
ATOM   1596  CB  LYS   234       9.301  59.651  94.794  1.00  6.93
ATOM   1597  CG  LYS   234       9.122  61.115  94.425  1.00  6.93
ATOM   1598  CD  LYS   234       7.653  61.465  94.247  1.00  6.93
ATOM   1599  CE  LYS   234       7.476  62.922  93.854  1.00  6.93
ATOM   1600  NZ  LYS   234       6.044  63.270  93.642  1.00  6.93
ATOM   1601  N   ASN   235      10.621  56.791  94.797  1.00  7.42
ATOM   1602  CA  ASN   235      10.581  55.443  95.311  1.00  7.42
ATOM   1603  C   ASN   235      11.896  55.111  95.931  1.00  7.42
ATOM   1604  O   ASN   235      11.939  54.484  96.987  1.00  7.42
ATOM   1605  CB  ASN   235      10.296  54.449  94.184  1.00  7.42
ATOM   1606  CG  ASN   235       8.858  54.504  93.708  1.00  7.42
ATOM   1607  OD1 ASN   235       7.978  54.993  94.416  1.00  7.42
ATOM   1608  ND2 ASN   235       8.615  54.002  92.503  1.00  7.42
ATOM   1609  N   THR   236      13.005  55.504  95.273  1.00  7.57
ATOM   1610  CA  THR   236      14.311  55.194  95.787  1.00  7.57
ATOM   1611  C   THR   236      14.561  55.906  97.079  1.00  7.57
ATOM   1612  O   THR   236      15.148  55.342  98.004  1.00  7.57
ATOM   1613  CB  THR   236      15.419  55.611  94.802  1.00  7.57
ATOM   1614  OG1 THR   236      15.267  54.888  93.574  1.00  7.57
ATOM   1615  CG2 THR   236      16.791  55.308  95.385  1.00  7.57
ATOM   1616  N   GLY   237      14.135  57.180  97.169  1.00  7.22
ATOM   1617  CA  GLY   237      14.370  57.927  98.368  1.00  7.22
ATOM   1618  C   GLY   237      13.056  58.021  99.129  1.00  7.22
ATOM   1619  O   GLY   237      12.547  56.956  99.570  1.00  7.22
TER
END
